search for: gaujoux

...tion: \Sexpr[results=verbatim, stage=render]{x <- 1; stop("sexpr error")} The strange thing is that it occurs at the example checking step. Not sure why it does not break before. Thank you. Renaud PS: I am on R version 2.13.2 (2011-09-30) - x86_64-pc-linux-gnu (64-bit) -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa

....5.2/libstdc++.a when searching for -lstdc++ /usr/bin/ld: cannot find -lstdc++ collect2: ld returned 1 exit status There is definitely some conflict or missing libraries going on... Any help is appreciated. Thank you. PS: Dirk do you want me to post this on the Rcpp list for record? -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa

....5.2/libstdc++.a when searching for -lstdc++ /usr/bin/ld: cannot find -lstdc++ collect2: ld returned 1 exit status There is definitely some conflict or missing libraries going on... Any help is appreciated. Thank you. PS: Dirk do you want me to post this on the Rcpp list for record? -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa

Hi, is there a way to define a method say '$$' that would behave like '$' and allow calls like 'a$$name'? Thanks. Renaud -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa ### UNIVERSITY OF CAPE TOWN This e-mail is subject to the UCT ICT policies and e-mail disclaimer published on our website at http://www.uct.ac.za/about/policies/emaildisclaimer/ or obtainable from +27 21 650 4500. This e-mail is in...

...`, which apparently uses internal network functions (not as download.file), but is supposed to work behind a proxy (correct?). Does anybody else have this problem? I was wondering if there is a way around, as I would like to be able to use --as-cran for my checks. Thank you. Renaud -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa

Hi Henrik (and list), I am interested in a similar feature, and would be happy to see the suggestions you got off-line :) Have you come up with a robust solution, which would work in a variety of situations (in examples, tests, \Sexpr calls, etc..)? Thank you. Bests, Renaud -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa

...fly the R code perform multiple matrix product; the C code is an optimization of those specific products via custom for loops, where entries are not computed in the same order, etc... which improves both memory usage and speed. The result is theoretically the same. Thank you, Renaud -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa ### UNIVERSITY OF CAPE TOWN This e-mail is subject to the UCT ICT policies and e-mail disclaimer published on our website at http://www.uct.ac.za/about/policies/emaildisclaimer/ or obtainable from +27 21 650 4500. This e-mail is in...

...html See reproducible example from Martin below. Thank you. Renaud ---------- Forwarded message ---------- From: Martin Morgan <mtmorgan at fhcrc.org> Date: 7 May 2013 19:55 Subject: Re: [Bioc-devel] ExpressionSet and LumiBatch: inheritance problem in S4 methods for union class To: Renaud Gaujoux <renaud at mancala.cbio.uct.ac.za> Cc: bioc-devel at r-project.org, dupan.mail at gmail.com I can replicate this with a simpler example, where PkgA has setClass("A", representation(x="numeric")) with NAMESPACE import(methods) exportClasses("A") PkgB ha...

...t;- i message("Custom ", a) }, { print(i) i * 2 }) [[2]] expression({ a <- i message("Custom ", a) }, { print(i) i * 2 }) [[3]] expression({ a <- i message("Custom ", a) }, { print(i) i * 2 }) -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa ### UNIVERSITY OF CAPE TOWN This e-mail is subject to the UCT ICT policies and e-mai...{{dropped:5}}

Hi, when mixing newline and backspace characters I get the following output (see below). In the second call, the backspace character is simply not applied. Is this normal behaviour? Thank you. > cat("abc\b") ab> cat("abc\b\n") abc > [[alternative HTML version deleted]]

...x, ...) standardGeneric('myfun')) setMethod('myfun', 'numeric', function(x, ...){ 'myfun,numeric' }) ") source(f, keep.source=TRUE) # there are srcref data for functions str(f) # no srcref data str(myfun) str(selectMethod(myfun, 'numeric')) -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa

Hi, is there a simple way, I mean a utility that converts a windows package (.zip file) to a Linux source package (tar.gz or even simply extract the source code and Rd files needed to run successfully a R CMD check). The windows package doesn't have any external lib, C code, etc..., just plain R code, so in theory it is quite straight forward (extract the code from the functions, and

Hi, running install.packages() to install a package from a local repository (i.e., starts with file:///) appears to delete the PACKAGES file that is in the src/contrib/ directory. This happens on a cluster running Scientific Linux release 6.4 (Carbon), but not on my Ubuntu local machine. Subsequent calls to install.packages() complain about src/contrib/PACKAGES not existing, although there still

Hi, from the man page ?methods, I expected to be able to build pairs (class,package) for a given S3 method, e.g., print, using attr(methods(print), 'info'). However all the methods, except the ones defined in base or S4 methods, get the 'from' value "registered S3method for print", instead of the actual package name (see below for the first rows). Is this normal

...RY=C LC_MESSAGES=en_ZA.utf8 LC_PAPER=en_ZA.utf8 [8] LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_ZA.utf8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa ### UNIVERSITY OF CAPE TOWN This e-mail is subject to the UCT ICT policies and e-mai...{{dropped:5}}

...LC_TELEPHONE=C [11] LC_MEASUREMENT=en_ZA.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] devtools_0.4 loaded via a namespace (and not attached): [1] RCurl_1.6-10 tools_2.13.2 -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa ### UNIVERSITY OF CAPE TOWN This e-mail is subject to the UCT ICT policies and e-mai...{{dropped:5}}

...uly 2015 at 15:48, Kevin Wright <kw.stat at gmail.com> wrote: > Not sure if this answers your question, but you can't unregister a method. See > > http://tolstoy.newcastle.edu.au/R/help/06/07/30791.html > > Kevin Wright > > > On Wed, Jul 8, 2015 at 5:09 AM, Renaud Gaujoux > <renaud at mancala.cbio.uct.ac.za> wrote: >> Thank you for your reply Martin. >> Your code made me realize that S3 methods are added to the >> .__S3MethodsTable__. of the package that defines the generic, not to >> the ones defining the method itself. >> How...

Hi, in my project I want the user to be able to write hook functions that are in turn called in my main code. I'd like the user's hooks to be able to call some function that set a variable outside their running environment. The trick is that this variable is not global, but defined on runtime before calling the hooks, and I don't want to leave any trace (i.e. global variables)

...LC_MONETARY=en_ZA.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_ZA.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_ZA.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base -- Renaud Gaujoux, PhD Systems Immunology - Technion, Haifa, Israel [[alternative HTML version deleted]]

...ckage implements a number of standard algorithms to perform Nonnegative Matrix Factorization. It also provides a flexible framework to easily test and develop new methods, as well as a layer to work with Bioconductor objects. The package is available from CRAN. Feedbacks are welcome. -- Renaud Gaujoux Computational Biology - University of Cape Town South Africa _______________________________________________ R-packages mailing list R-packages at r-project.org https://stat.ethz.ch/mailman/listinfo/r-packages